plot.rf {qtl}R Documentation

Plot recombination fractions

Description

Plot a grid showing the recombination fractions for all pairs of markers, or of the LOD scores between pairs of markers.

Usage

plot.rf(x, chr, which="both", ...)

Arguments

x An object of class cross. See read.cross for details.
chr Vector specifying which chromosomes to plot (optional)
which Indicate whether to plot LOD scores, recombination fractions or both (lod, rf or both).
... Ignored at this point.

Value

Uses image to plot a grid showing either the recombination fractions or LOD scores for all pairs of markers or both (in which case LOD scores are in the lower triangle and recombination fractions are in the upper triangle). Note that missing values appear in gray.

Author(s)

Karl W Broman, kbroman@jhsph.edu
http://biosun01.biostat.jhsph.edu/~kbroman/software/qtl.html

See Also

image, est.rf

Examples

data(fake.bc)
fake.bc <- est.rf(fake.bc)
plot.rf(fake.bc)
plot.rf(fake.bc,which="lod")
plot.rf(fake.bc,c(1,5),which="rf")
[Package Contents]